TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

ath-miR161.1

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UGAAAGUGACUACAUCGGGGU

miRBase

Precursor miRNA Sequence(5'-3')

UGCUUGAUCUCGGUUUUUGACCAGUUUAUUGCGUCGAUCAAUGCAUUGAAAGUGACUACAUCGGGGUUCCGAUUUUUUUUGUUCUUCAUAUGAUGAAGCGGAAACAGUAAUCAACCCUGGUUUAGUCACUUUCACUGCAUUAAUCAAUGCAUUUGUAAAAAGAGGGAAAAGCA

miRBase

Precursor miRNA Structure(5'-3') 

UGCUUGAUCUCGGUUUUUGACCAG     ---     C   C      U            C         -CCG   U      UU        
                        UUUAU   UGCGU GAU AAUGCA UGAAAGUGACUA AUCGGGGUU    AUU UUUUUG  CUUCAUA 
                        |||||   ||||| ||| |||||| |||||||||||| |||||||||    ||| ||||||  |||||| U
                        AAAUG   ACGUA CUA UUACGU ACUUUCACUGAU UGGUCCCAA    UGA AAAGGC  GAAGUAU 
----------ACGAAAAGGGAGAA     UUU     A   A      C            U         CUAA   C      --

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

cru-miR161           UUGAAAGUGACUACAUCGGGG-
aly-miR161-5p.1      UUGAAAGUGACUACAUCGGGG-
ath-miR161.1         -UGAAAGUGACUACAUCGGGGU
aly-miR161-3p.1      -CCGGUUUAGUCACUUUCAC--
                            *    ** *